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Guberman-Pfeffer MJ. To be or not to be a cytochrome: electrical characterizations are inconsistent with Geobacter cytochrome 'nanowires'. Front Microbiol 2024; 15:1397124. [PMID: 38633696 PMCID: PMC11021709 DOI: 10.3389/fmicb.2024.1397124] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2024] [Accepted: 03/21/2024] [Indexed: 04/19/2024] Open
Abstract
Geobacter sulfurreducens profoundly shapes Earth's biogeochemistry by discharging respiratory electrons to minerals and other microbes through filaments of a two-decades-long debated identity. Cryogenic electron microscopy has revealed filaments of redox-active cytochromes, but the same filaments have exhibited hallmarks of organic metal-like conductivity under cytochrome denaturing/inhibiting conditions. Prior structure-based calculations and kinetic analyses on multi-heme proteins are synthesized herein to propose that a minimum of ~7 cytochrome 'nanowires' can carry the respiratory flux of a Geobacter cell, which is known to express somewhat more (≥20) filaments to increase the likelihood of productive contacts. By contrast, prior electrical and spectroscopic structural characterizations are argued to be physiologically irrelevant or physically implausible for the known cytochrome filaments because of experimental artifacts and sample impurities. This perspective clarifies our mechanistic understanding of physiological metal-microbe interactions and advances synthetic biology efforts to optimize those interactions for bioremediation and energy or chemical production.
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2
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Wang F, Craig L, Liu X, Rensing C, Egelman EH. Microbial nanowires: type IV pili or cytochrome filaments? Trends Microbiol 2023; 31:384-392. [PMID: 36446702 PMCID: PMC10033339 DOI: 10.1016/j.tim.2022.11.004] [Citation(s) in RCA: 15] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2022] [Revised: 11/08/2022] [Accepted: 11/09/2022] [Indexed: 11/27/2022]
Abstract
A dynamic field of study has emerged involving long-range electron transport by extracellular filaments in anaerobic bacteria, with Geobacter sulfurreducens being used as a model system. The interest in this topic stems from the potential uses of such systems in bioremediation, energy generation, and new bio-based nanotechnology for electronic devices. These conductive extracellular filaments were originally thought, based upon low-resolution observations of dried samples, to be type IV pili (T4P). However, the recently published atomic structure for the T4P from G. sulfurreducens, obtained by cryo-electron microscopy (cryo-EM), is incompatible with the numerous models that have been put forward for electron conduction. As with all high-resolution structures of T4P, the G. sulfurreducens T4P structure shows a partial melting of the α-helix that substantially impacts the aromatic residue positions such that they are incompatible with conductivity. Furthermore, new work using high-resolution cryo-EM shows that conductive filaments thought to be T4P are actually polymerized cytochromes, with stacked heme groups forming a continuous conductive wire, or extracellular DNA. Recent atomic structures of three different cytochrome filaments from G. sulfurreducens suggest that such polymers evolved independently on multiple occasions. The expectation is that such polymerized cytochromes may be found emanating from other anaerobic organisms.
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Affiliation(s)
- Fengbin Wang
- Department of Biochemistry and Molecular Genetics, University of Virginia School of Medicine, Charlottesville, VA 22903, USA
| | - Lisa Craig
- Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia, Canada
| | - Xing Liu
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Christopher Rensing
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Edward H Egelman
- Department of Biochemistry and Molecular Genetics, University of Virginia School of Medicine, Charlottesville, VA 22903, USA.
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3
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Mezzina Freitas LP, Feliciano GT. Atomic and Electronic Structure of Pilus from Geobacter sulfurreducens through QM/MM Calculations: Evidence for Hole Transfer in Aromatic Residues. J Phys Chem B 2021; 125:8305-8312. [PMID: 34292748 DOI: 10.1021/acs.jpcb.1c01185] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Long-range electron transport has been widely and experimentally reported in Geobacter sulfurreducens pilus protein. However, a better understanding of the still undefined molecular arrangement can bring to light the role of key residues in this phenomenon. We propose a theoretical investigation of the electronic structure of aromatic residue groups in the protein through a classical molecular dynamics (MD) simulation, followed by a quantum mechanics/molecular mechanics (QM/MM) electronic study of different frames sampled from MD trajectories, an electrostatic potential and electron density analysis, an analysis of the density of states, and an investigation of hole formation through Dyson orbital calculations. We observe a highest occupied molecular orbital-lowest unoccupied molecular orbital (HOMO-LUMO) energy gap in the ranges of 1.4-2.3 eV and 2.9-3.3 eV and a less intense dipole moment along the aromatic residues in the presence of water in comparison to the system in vacuum. HOMO and LUMO electron densities highlight the occupation of one tyrosine residue in every representation for HOMO and a delocalization along two to three rings for LUMO. The results show how the electronic structure of the aromatic residues is sensitive to the ring arrangement and the surrounding environment. In our study, we observe that slight rearrangements in the fiber geometry can create temporary conditions for hole transfer.
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Affiliation(s)
- Luis Paulo Mezzina Freitas
- Institute of Chemistry, Department of Engineering, Physics and Mathematics, São Paulo State University, Prof. Francisco Degni 55, 14800-060 Araraquara, Brazil
| | - Gustavo Troiano Feliciano
- Institute of Chemistry, Department of Engineering, Physics and Mathematics, São Paulo State University, Prof. Francisco Degni 55, 14800-060 Araraquara, Brazil
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4
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Self-assembled oil palm biomass-derived modified graphene oxide anode: An efficient medium for energy transportation and bioremediating Cd (II) via microbial fuel cells. ARAB J CHEM 2021. [DOI: 10.1016/j.arabjc.2021.103121] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
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5
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Zheng T, Xu B, Ji Y, Zhang W, Xin F, Dong W, Wei P, Ma J, Jiang M. A staged representation electrochemical stimulated strategy to regulate intracellular reducing power for improving succinate production by Escherichia coli AFP111. Biotechnol J 2021; 16:e2000415. [PMID: 33580738 DOI: 10.1002/biot.202000415] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2020] [Revised: 01/06/2021] [Accepted: 01/12/2021] [Indexed: 01/02/2023]
Abstract
BACKGROUND Escherichia coli AFP111 was previously engineered for succinate production by eliminating byproducts of synthesis pathways. Still, the succinate yield is limited due to the insufficient NADH supplement, when fed with glucose. Microbial electrolysis cell (MEC) allows microorganisms to perform unbalanced fermentation by establishing polarized cathode interaction. METHODS AND RESULTS In this study, a cathode electrode was used as an additional electron donor to improve succinate synthesis by E. coli AFP111. In MEC with -0.65 V (vs. Ag/AgCl) poised on cathode electrode, 95.72% electrons were transferred into cells via neutral red (NR), and the ratio of NADH/NAD+ increased by 2.5-fold. Meanwhile, compared with the control experiment, the value of oxidation-reduction potential (ORP) changed from -240 to -265 mV in MEC, which was beneficial for NADH generation. During two-stage fermentation (no potential growth stage followed by electric stimulation) in MEC, succinate yield was increased by 29.09% (the final yield was 0.71 g g-1 ), and glucose consumption rate was enhanced by 36.22%. In addition, the carbon flux was pumped to succinate and pyruvate metabolism was enhanced. CONCLUSION AND IMPLICATIONS Staged representation of electrochemical stimulated strategy is effective for succinate producing in engineered E. coli by regulating intracellular reducing power, which provides a new concept for producing reduced metabolite in unbalanced fermentation.
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Affiliation(s)
- Tianwen Zheng
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, P. R. China
| | - Bin Xu
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, P. R. China
| | - Yaliang Ji
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, P. R. China
| | - Wenming Zhang
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, P. R. China.,Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing Tech University, Nanjing, P. R. China
| | - Fengxue Xin
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, P. R. China.,Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing Tech University, Nanjing, P. R. China
| | - Weiliang Dong
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, P. R. China.,Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing Tech University, Nanjing, P. R. China
| | - Ping Wei
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, P. R. China.,Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing Tech University, Nanjing, P. R. China
| | - Jiangfeng Ma
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, P. R. China.,Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing Tech University, Nanjing, P. R. China
| | - Min Jiang
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, P. R. China.,Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing Tech University, Nanjing, P. R. China
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6
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Yalcin SE, Malvankar NS. The blind men and the filament: Understanding structures and functions of microbial nanowires. Curr Opin Chem Biol 2020; 59:193-201. [PMID: 33070100 PMCID: PMC7736336 DOI: 10.1016/j.cbpa.2020.08.004] [Citation(s) in RCA: 49] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2020] [Accepted: 08/20/2020] [Indexed: 12/18/2022]
Abstract
Extracellular electron transfer via filamentous protein appendages called 'microbial nanowires' has long been studied in Geobacter and other bacteria because of their crucial role in globally-important environmental processes and their applications for bioenergy, biofuels, and bioelectronics. Thousands of papers thought these nanowires as pili without direct evidence. Here, we summarize recent discoveries that could help resolve two decades of confounding observations. Using cryo-electron microscopy with multimodal functional imaging and a suite of electrical, biochemical, and physiological studies, we find that rather than pili, nanowires are composed of cytochromes OmcS and OmcZ that transport electrons via seamless stacking of hemes over micrometers. We discuss the physiological need for two different nanowires and their potential applications for sensing, synthesis, and energy production.
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Affiliation(s)
- Sibel Ebru Yalcin
- Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, 06510, USA; Microbial Sciences Institute, Yale University, New Haven, CT, 06516, USA.
| | - Nikhil S Malvankar
- Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, 06510, USA; Microbial Sciences Institute, Yale University, New Haven, CT, 06516, USA.
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7
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Roy S, Xie O, Dorval Courchesne N. Challenges in engineering conductive protein fibres: Disentangling the knowledge. CAN J CHEM ENG 2020. [DOI: 10.1002/cjce.23836] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Sophia Roy
- Department of Chemical Engineering McGill University Montréal Québec Canada
| | - Oliver Xie
- Department of Chemical Engineering McGill University Montréal Québec Canada
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8
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Ru X, Zhang P, Beratan DN. Assessing Possible Mechanisms of Micrometer-Scale Electron Transfer in Heme-Free Geobacter sulfurreducens Pili. J Phys Chem B 2019; 123:5035-5047. [PMID: 31095388 DOI: 10.1021/acs.jpcb.9b01086] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The electrically conductive pili of Geobacter sulfurreducens are of both fundamental and practical interest. They facilitate extracellular and interspecies electron transfer (ET) and also provide an electrical interface between living and nonliving systems. We examine the possible mechanisms of G. sulfurreducens electron transfer in regimes ranging from incoherent to coherent transport. For plausible ET parameters, electron transfer in G. sulfurreducens bacterial nanowires mediated only by the protein is predicted to be dominated by incoherent hopping between phenylalanine (Phe) and tyrosine (Tyr) residues that are 3 to 4 Å apart, where Phe residues in the hopping pathways may create delocalized "islands." This mechanism could be accessible in the presence of strong oxidants that are capable of oxidizing Phe and Tyr residues. We also examine the physical requirements needed to sustain biological respiration via nanowires. We find that the hopping regimes with ET rates on the order of 108 s-1 between Phe islands and Tyr residues, and conductivities on the order of mS/cm, can support ET fluxes that are compatible with cellular respiration rates, although sustaining this delocalization in the heterogeneous protein environment may be challenging. Computed values of fully coherent electron fluxes through the pili are orders of magnitude too low to support microbial respiration. We suggest experimental probes of the transport mechanism based on mutant studies to examine the roles of aromatic amino acids and yet to be identified redox cofactors.
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Affiliation(s)
- Xuyan Ru
- Department of Chemistry , Duke University , Durham , North Carolina 27708 , United States
| | - Peng Zhang
- Department of Chemistry , Duke University , Durham , North Carolina 27708 , United States
| | - David N Beratan
- Department of Chemistry , Duke University , Durham , North Carolina 27708 , United States.,Department of Biochemistry , Duke University , Durham , North Carolina 27710 , United States.,Department of Physics , Duke University , Durham , North Carolina 27708 , United States
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9
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Lebedev N, Stroud RM, Yates MD, Tender LM. Spatially Resolved Chemical Analysis of Geobacter sulfurreducens Cell Surface. ACS NANO 2019; 13:4834-4842. [PMID: 30943001 DOI: 10.1021/acsnano.9b02032] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Geobacter sulfurreducens is of interest for the highest efficiency of power generation and extremely long extracellular electron transfer (EET) between the bacterium and electrodes. Despite more than 15 years of intensive molecular biological research, there is still no clear answer which molecules are responsible for these processes. In the present work, we look at the problem from another (atomic) perspective and identify the location and shape of the compounds that are known to be conductive, particularly those containing Fe atoms. By using highly sophisticated energy dispersive X-ray spectroscopy combined with high-angle annular dark-field transmission electron microscopy enabling detection, identification, and localization of chemical compounds on the surface at nearly atomic spatial resolution, we analyze Fe spatial distribution within the G. sulfurreducens community. We discover the presence of small Fe-containing particles on the surface of the bacterium cells. The size of the particles (diameter 5.6 nm) is highly reproducible and comparable with the size of a single protein. The particles cover about 2% of the cell surface, which is similar to that expected for molecular conductors responsible for electron transfer through the bacterium cell wall. We find that G. sulfurreducens filaments ("bacterial molecular wires") also contain Fe atoms in their bundles. We observe that the bacterium enable changing the distance between the Fe-containing bundles in the filaments from separated to attached (the latter is needed for the efficient electron transfer between the Fe-containing particles), depending on the bacterium metabolic activity and attachment to extracellular substrates. These results are consistent with the recently published research about the role of Fe atoms in protein molecular conductance ( Phys. Chem. Chem. Phys. , 2018 , 20 , 14072 - 14081 ) and show what type of Fe-containing particles are involved in the bacterial extracellular communication. They can be used for the design and construction of artificial biomolecular wires and bioinorganic interfaces.
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Affiliation(s)
- Nikolai Lebedev
- Center for Bio/Molecular Science and Engineering , U.S. Naval Research Laboratory , Washington , DC 20375 , United States
| | - Rhonda M Stroud
- Materials Science and Technology Division , U.S. Naval Research Laboratory , Washington , DC 20375 , United States
| | - Matthew D Yates
- Center for Bio/Molecular Science and Engineering , U.S. Naval Research Laboratory , Washington , DC 20375 , United States
| | - Leonard Martin Tender
- Center for Bio/Molecular Science and Engineering , U.S. Naval Research Laboratory , Washington , DC 20375 , United States
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10
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Li D, Li J, Liu D, Ma X, Cheng L, Li W, Qian C, Mu Y, Yu H. Potential regulates metabolism and extracellular respiration of electroactiveGeobacterbiofilm. Biotechnol Bioeng 2019; 116:961-971. [DOI: 10.1002/bit.26928] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2018] [Revised: 11/26/2018] [Accepted: 01/17/2019] [Indexed: 01/02/2023]
Affiliation(s)
- Dao‐Bo Li
- Department of Applied ChemistryUniversity of Science and Technology of ChinaHefei China
| | - Jie Li
- Department of Applied ChemistryUniversity of Science and Technology of ChinaHefei China
| | - Dong‐Feng Liu
- Department of Applied ChemistryUniversity of Science and Technology of ChinaHefei China
| | - Xin Ma
- School of Life Sciences, University of Science and Technology of ChinaHefei China
| | - Lei Cheng
- School of Life Sciences, University of Science and Technology of ChinaHefei China
| | - Wen‐Wei Li
- Department of Applied ChemistryUniversity of Science and Technology of ChinaHefei China
| | - Chen Qian
- Department of Applied ChemistryUniversity of Science and Technology of ChinaHefei China
| | - Yang Mu
- Department of Applied ChemistryUniversity of Science and Technology of ChinaHefei China
| | - Han‐Qing Yu
- Department of Applied ChemistryUniversity of Science and Technology of ChinaHefei China
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11
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Electron transfer and transport through multi-heme proteins: recent progress and future directions. Curr Opin Chem Biol 2018; 47:24-31. [DOI: 10.1016/j.cbpa.2018.06.021] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2018] [Accepted: 06/24/2018] [Indexed: 12/20/2022]
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12
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Yates MD, Barr Engel S, Eddie BJ, Lebedev N, Malanoski AP, Tender LM. Redox-gradient driven electron transport in a mixed community anodic biofilm. FEMS Microbiol Ecol 2018; 94:4990946. [DOI: 10.1093/femsec/fiy081] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2018] [Accepted: 05/01/2018] [Indexed: 11/13/2022] Open
Affiliation(s)
- Matthew D Yates
- Center for Bio/Molecular Science and Engineering, Naval Research Laboratory, 4555 Overlook Ave SW, Washington, DC, 20375, USA
| | - Sarah Barr Engel
- Department of Civil and Environmental Engineering, Cornell University, 220 Hollister Hall, Ithaca, NY, 14853, USA
| | - Brian J Eddie
- Center for Bio/Molecular Science and Engineering, Naval Research Laboratory, 4555 Overlook Ave SW, Washington, DC, 20375, USA
| | - Nikolai Lebedev
- Center for Bio/Molecular Science and Engineering, Naval Research Laboratory, 4555 Overlook Ave SW, Washington, DC, 20375, USA
| | - Anthony P Malanoski
- Center for Bio/Molecular Science and Engineering, Naval Research Laboratory, 4555 Overlook Ave SW, Washington, DC, 20375, USA
| | - Leonard M Tender
- Center for Bio/Molecular Science and Engineering, Naval Research Laboratory, 4555 Overlook Ave SW, Washington, DC, 20375, USA
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13
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Microbial nanowires - Electron transport and the role of synthetic analogues. Acta Biomater 2018; 69:1-30. [PMID: 29357319 DOI: 10.1016/j.actbio.2018.01.007] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2017] [Revised: 01/07/2018] [Accepted: 01/09/2018] [Indexed: 02/07/2023]
Abstract
Electron transfer is central to cellular life, from photosynthesis to respiration. In the case of anaerobic respiration, some microbes have extracellular appendages that can be utilised to transport electrons over great distances. Two model organisms heavily studied in this arena are Shewanella oneidensis and Geobacter sulfurreducens. There is some debate over how, in particular, the Geobacter sulfurreducens nanowires (formed from pilin nanofilaments) are capable of achieving the impressive feats of natural conductivity that they display. In this article, we outline the mechanisms of electron transfer through delocalised electron transport, quantum tunnelling, and hopping as they pertain to biomaterials. These are described along with existing examples of the different types of conductivity observed in natural systems such as DNA and proteins in order to provide context for understanding the complexities involved in studying the electron transport properties of these unique nanowires. We then introduce some synthetic analogues, made using peptides, which may assist in resolving this debate. Microbial nanowires and the synthetic analogues thereof are of particular interest, not just for biogeochemistry, but also for the exciting potential bioelectronic and clinical applications as covered in the final section of the review. STATEMENT OF SIGNIFICANCE Some microbes have extracellular appendages that transport electrons over vast distances in order to respire, such as the dissimilatory metal-reducing bacteria Geobacter sulfurreducens. There is significant debate over how G. sulfurreducens nanowires are capable of achieving the impressive feats of natural conductivity that they display: This mechanism is a fundamental scientific challenge, with important environmental and technological implications. Through outlining the techniques and outcomes of investigations into the mechanisms of such protein-based nanofibrils, we provide a platform for the general study of the electronic properties of biomaterials. The implications are broad-reaching, with fundamental investigations into electron transfer processes in natural and biomimetic materials underway. From these studies, applications in the medical, energy, and IT industries can be developed utilising bioelectronics.
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14
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Grebenko A, Dremov V, Barzilovich P, Bubis A, Sidoruk K, Voeikova T, Gagkaeva Z, Chernov T, Korostylev E, Gorshunov B, Motovilov K. Impedance spectroscopy of single bacterial nanofilament reveals water-mediated charge transfer. PLoS One 2018; 13:e0191289. [PMID: 29351332 PMCID: PMC5774759 DOI: 10.1371/journal.pone.0191289] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2017] [Accepted: 01/02/2018] [Indexed: 11/19/2022] Open
Abstract
For decades respiratory chain and photosystems were the main firing field of the studies devoted to mechanisms of electron transfer in proteins. The concept of conjugated lateral electron and transverse proton transport during cellular respiration and photosynthesis, which was formulated in the beginning of 1960-s, has been confirmed by thousands of experiments. However, charge transfer in recently discovered bacterial nanofilaments produced by various electrogenic bacteria is regarded currently outside of electron and proton conjugation concept. Here we report the new study of charge transfer within nanofilaments produced by Shewanella oneidensis MR-1 conducted in atmosphere of different relative humidity (RH). We utilize impedance spectroscopy and DC (direct current) transport measurements to find out the peculiarities of conductivity and Raman spectroscopy to analyze the nanofilaments' composition. Data analysis demonstrates that apparent conductivity of nanofilaments has crucial sensitivity to humidity and contains several components including one with unusual behavior which we assign to electron transport. We demonstrate that in the case of Shewanella oneidensis MR-1 charge transfer within these objects is strongly mediated by water. Basing on current data analysis of conductivity we conclude that the studied filaments of Shewanella oneidensis MR-1 are capable of hybrid (conjugated) electron and ion conductivity.
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Affiliation(s)
- Artem Grebenko
- Moscow Institute of Physics and Technology, Institute lane 9, Dolgoprudny, Russian Federation
- Institute of Solid State Physics (RAS), Academician Osipyana street 2, Chernogolovka, Russia
| | - Vyacheslav Dremov
- Moscow Institute of Physics and Technology, Institute lane 9, Dolgoprudny, Russian Federation
- Institute of Solid State Physics (RAS), Academician Osipyana street 2, Chernogolovka, Russia
| | - Petr Barzilovich
- Moscow Institute of Physics and Technology, Institute lane 9, Dolgoprudny, Russian Federation
- Institute of Problems of Chemical Physics (RAS), Academician Semenov avenue 1, Chernogolovka, Russia
| | - Anton Bubis
- Moscow Institute of Physics and Technology, Institute lane 9, Dolgoprudny, Russian Federation
- Institute of Solid State Physics (RAS), Academician Osipyana street 2, Chernogolovka, Russia
| | - Konstantin Sidoruk
- Scientific Center of Russian Federation Research Institute for Genetics and Selection of Industrial Microorganisms, 1-st Dorozhniy pr., 1, Moscow, Russia
| | - Tatiyana Voeikova
- Scientific Center of Russian Federation Research Institute for Genetics and Selection of Industrial Microorganisms, 1-st Dorozhniy pr., 1, Moscow, Russia
| | - Zarina Gagkaeva
- Moscow Institute of Physics and Technology, Institute lane 9, Dolgoprudny, Russian Federation
| | - Timur Chernov
- Moscow Institute of Physics and Technology, Institute lane 9, Dolgoprudny, Russian Federation
- Institute of Problems of Chemical Physics (RAS), Academician Semenov avenue 1, Chernogolovka, Russia
| | - Evgeny Korostylev
- Moscow Institute of Physics and Technology, Institute lane 9, Dolgoprudny, Russian Federation
| | - Boris Gorshunov
- Moscow Institute of Physics and Technology, Institute lane 9, Dolgoprudny, Russian Federation
| | - Konstantin Motovilov
- Moscow Institute of Physics and Technology, Institute lane 9, Dolgoprudny, Russian Federation
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15
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Lebedev N, Griva I, Blom A, Tender LM. Effect of iron doping on protein molecular conductance. Phys Chem Chem Phys 2018; 20:14072-14081. [DOI: 10.1039/c8cp00656c] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
This study analyzes the role of Fe in electron transfer through non-heme iron-containing proteins.
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Affiliation(s)
- Nikolai Lebedev
- Center for Bio-Molecular Science and Engineering
- U.S. Naval Research Laboratory
- Washington
- USA
| | - Igor Griva
- Department of Mathematical Sciences and Center for Simulation and Modeling
- George Mason University
- Fairfax
- USA
| | | | - Leonard M. Tender
- Center for Bio-Molecular Science and Engineering
- U.S. Naval Research Laboratory
- Washington
- USA
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16
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Li C, Lesnik KL, Liu H. Stay connected: Electrical conductivity of microbial aggregates. Biotechnol Adv 2017; 35:669-680. [PMID: 28768145 DOI: 10.1016/j.biotechadv.2017.07.010] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2017] [Revised: 07/25/2017] [Accepted: 07/27/2017] [Indexed: 01/01/2023]
Abstract
The discovery of direct extracellular electron transfer offers an alternative to the traditional understanding of diffusional electron exchange via small molecules. The establishment of electronic connections between electron donors and acceptors in microbial communities is critical to electron transfer via electrical currents. These connections are facilitated through conductivity associated with various microbial aggregates. However, examination of conductivity in microbial samples is still in its relative infancy and conceptual models in terms of conductive mechanisms are still being developed and debated. The present review summarizes the fundamental understanding of electrical conductivity in microbial aggregates (e.g. biofilms, granules, consortia, and multicellular filaments) highlighting recent findings and key discoveries. A greater understanding of electrical conductivity in microbial aggregates could facilitate the survey for additional microbial communities that rely on direct extracellular electron transfer for survival, inform rational design towards the aggregates-based production of bioenergy/bioproducts, and inspire the construction of new synthetic conductive polymers.
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Affiliation(s)
- Cheng Li
- Biological and Ecological Engineering, Oregon State University, Corvallis, OR 97333, USA
| | - Keaton Larson Lesnik
- Biological and Ecological Engineering, Oregon State University, Corvallis, OR 97333, USA
| | - Hong Liu
- Biological and Ecological Engineering, Oregon State University, Corvallis, OR 97333, USA.
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Zhang X, Philips J, Roume H, Guo K, Rabaey K, Prévoteau A. Rapid and Quantitative Assessment of Redox Conduction Across Electroactive Biofilms by using Double Potential Step Chronoamperometry. ChemElectroChem 2017. [DOI: 10.1002/celc.201600853] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Xu Zhang
- Center for Microbial Ecology and Technology (cmet); Ghent University; Coupure Links 653 9000 Ghent Belgium
| | - Jo Philips
- Center for Microbial Ecology and Technology (cmet); Ghent University; Coupure Links 653 9000 Ghent Belgium
| | - Hugo Roume
- Center for Microbial Ecology and Technology (cmet); Ghent University; Coupure Links 653 9000 Ghent Belgium
- MetaGenoPolis; INRA; Université Paris-Saclay Domaine de Vilvert; Bâtiment 325 78350 Jouy-en-Josas France
| | - Kun Guo
- Center for Microbial Ecology and Technology (cmet); Ghent University; Coupure Links 653 9000 Ghent Belgium
| | - Korneel Rabaey
- Center for Microbial Ecology and Technology (cmet); Ghent University; Coupure Links 653 9000 Ghent Belgium
| | - Antonin Prévoteau
- Center for Microbial Ecology and Technology (cmet); Ghent University; Coupure Links 653 9000 Ghent Belgium
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Adhikari RY, Malvankar NS, Tuominen MT, Lovley DR. Conductivity of individual Geobacter pili. RSC Adv 2016. [DOI: 10.1039/c5ra28092c] [Citation(s) in RCA: 133] [Impact Index Per Article: 16.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023] Open
Abstract
Measurements of the conductivity of hydrated individual pili of Geobacter sulfurreducens that were not subjected to chemical fixation revealed conductivity along cytochrome-free regions comparable to conducting organic polymer nanowires of similar diameter.
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Affiliation(s)
| | - Nikhil S. Malvankar
- Department of Physics
- University of Massachusetts
- Amherst
- USA
- Department of Microbiology
| | | | - Derek R. Lovley
- Department of Microbiology
- University of Massachusetts
- Amherst
- USA
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